Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr4
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 92286807
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3302597 characters in sequence are not A, C, G, or T
File 140 of 271
Found at i:47293288 original size:37 final size:36
Alignment explanation
Indices: 47293238--47293376 Score: 199
Period size: 37 Copynumber: 3.8 Consensus size: 36
47293228 ACATGAAACT
47293238 TGGAAATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAAT-TATTCCGGGTAAGACCCGATGACTACGTG
*
47293275 TGGAAATATATTCCGGGTAAGACCCGATGACTACATG
1 TGGAAAT-TATTCCGGGTAAGACCCGATGACTACGTG
*
47293312 TGGAGATTATGTCCGGGTAAGACCCGATGACTACGTG
1 TGGAAATTAT-TCCGGGTAAGACCCGATGACTACGTG
*
47293349 TGGAGATT-TTGCCCGGGTAAGACCCGAT
1 TGGAAATTATT--CCGGGTAAGACCCGAT
47293377 AACTTTGTGT
Statistics
Matches: 96, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
35 1 0.01
36 4 0.04
37 91 0.95
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.24
Consensus pattern (36 bp):
TGGAAATTATTCCGGGTAAGACCCGATGACTACGTG
Found at i:47293387 original size:37 final size:36
Alignment explanation
Indices: 47293250--47293394 Score: 193
Period size: 37 Copynumber: 3.9 Consensus size: 36
47293240 GAAATATATT
*
47293250 CCGGGTAAGACCCGATGACTACGTGTGGAAATATATT-
1 CCGGGTAAGACCCGATGACTACGTGTGGAGAT-T-TTG
* *
47293287 CCGGGTAAGACCCGATGACTACATGTGGAGATTATG
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
47293323 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 -CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* **
47293360 CCCGGGTAAGACCCGATAACTTTGTGTGGAGATTT
1 -CCGGGTAAGACCCGATGACTACGTGTGGAGATTT
47293395 CATCTGAGCT
Statistics
Matches: 97, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
35 1 0.01
36 1 0.01
37 95 0.98
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (36 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:47302144 original size:46 final size:46
Alignment explanation
Indices: 47301963--47302144 Score: 156
Period size: 46 Copynumber: 3.9 Consensus size: 46
47301953 TCCTCTCGTA
* ** ** * ** *
47301963 GCCGATGCATGTCCTAGACATACCTTACACGGGCTTACATCTTGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAATGTG
* *
47302009 GCCGATGCATGTCCCAGACATGTCTTACACTATCCCTCGTC-TCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTA--GCTC-ACAT-AATGTG
* * *
47302055 GCTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCACATAATGTG
47302103 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAA
47302145 GTGACACAAA
Statistics
Matches: 109, Mismatches: 17, Indels: 20
0.75 0.12 0.14
Matches are distributed among these distances:
45 4 0.04
46 56 0.51
47 29 0.27
48 19 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCACATAATGTG
Found at i:47317279 original size:6 final size:6
Alignment explanation
Indices: 47317261--47317357 Score: 74
Period size: 6 Copynumber: 15.8 Consensus size: 6
47317251 AAGAAACATT
* *
47317261 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAG- GTGACAAA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
47317310 ATCAGA ATTAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
47317358 GTAACAAAAT
Statistics
Matches: 72, Mismatches: 11, Indels: 16
0.73 0.11 0.16
Matches are distributed among these distances:
5 4 0.06
6 60 0.83
7 6 0.08
8 2 0.03
ACGTcount: A:0.47, C:0.15, G:0.18, T:0.20
Consensus pattern (6 bp):
ATCAGA
Found at i:47317310 original size:31 final size:31
Alignment explanation
Indices: 47317272--47317411 Score: 172
Period size: 31 Copynumber: 4.5 Consensus size: 31
47317262 TCAGAACTAG
* * *
47317272 AATCAGAATCAGAATCAGAATCAGGTGACAA
1 AATCAAAATCAGAATCAGTATCAGGTAACAA
* * *
47317303 AATCAGAATCAGAATTAGTATCAGGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAA
47317334 AATCAAAATCAGAATCAGTATCAGGTAACAA
1 AATCAAAATCAGAATCAGTATCAGGTAACAA
* * * *
47317365 AATCAAAATTAGAATCAGCATCACGTAACAG
1 AATCAAAATCAGAATCAGTATCAGGTAACAA
*
47317396 AATAAAAAATCAGAAT
1 AAT-CAAAATCAGAAT
47317412 GTGAATGCAA
Statistics
Matches: 95, Mismatches: 13, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
31 85 0.89
32 10 0.11
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (31 bp):
AATCAAAATCAGAATCAGTATCAGGTAACAA
Found at i:47317344 original size:62 final size:62
Alignment explanation
Indices: 47317270--47317411 Score: 194
Period size: 62 Copynumber: 2.3 Consensus size: 62
47317260 TATCAGAACT
* * * * * *
47317270 AGAATCAGAATCAGAATCAGAATCAGGTGACAAAATCAGAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGCATCACGTAAC
* *
47317332 AGAATCAAAATCAGAATCAGTATCAGGTAACAAAATCAAAATTAGAATCAGCATCACGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGCATCACGTAAC
*
47317394 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
47317412 GTGAATGCAA
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 59 0.84
63 11 0.16
ACGTcount: A:0.51, C:0.15, G:0.15, T:0.19
Consensus pattern (62 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAACAAAATCAAAATCAGAATCAGCATCACGTAAC
Found at i:47317611 original size:26 final size:27
Alignment explanation
Indices: 47317548--47317622 Score: 98
Period size: 27 Copynumber: 2.8 Consensus size: 27
47317538 GCTCAGTTAT
* * *
47317548 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACTAGATA
47317575 CAGATATTGTGGCAGAGCCACTAGA-A
1 CAGATATTGTGGCAGAGCCACTAGATA
* *
47317601 CAGATAATGTGGCAAAGCCACT
1 CAGATATTGTGGCAGAGCCACT
47317623 TAACAGAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 21 0.49
27 22 0.51
ACGTcount: A:0.36, C:0.20, G:0.24, T:0.20
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACTAGATA
Found at i:47317637 original size:25 final size:26
Alignment explanation
Indices: 47317574--47317639 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
47317564 GTCACCAGAT
** *
47317574 ACAGATATTGTGGCAGAGCCACTAGA
1 ACAGATAACGTGGCAAAGCCACTAGA
* *
47317600 ACAGATAATGTGGCAAAGCCACT-TA
1 ACAGATAACGTGGCAAAGCCACTAGA
47317625 ACAGA-ATACGTGGCA
1 ACAGATA-ACGTGGCA
47317640 CAAAGCCATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
24 1 0.03
25 13 0.37
26 21 0.60
ACGTcount: A:0.38, C:0.20, G:0.24, T:0.18
Consensus pattern (26 bp):
ACAGATAACGTGGCAAAGCCACTAGA
Found at i:47317808 original size:22 final size:22
Alignment explanation
Indices: 47317780--47317844 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
47317770 GCAAATACGT
*
47317780 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
47317802 TTGGCACAGAGCCAT-GTGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
47317824 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
47317845 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.32, C:0.23, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:47318328 original size:27 final size:27
Alignment explanation
Indices: 47318270--47318574 Score: 294
Period size: 27 Copynumber: 11.3 Consensus size: 27
47318260 ACGGGCAAAA
* * * *
47318270 TGGTTATTTTACCCTACA-AGGTATCT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
47318296 CGGTAATTCCACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
47318323 TAGTAATTCTATCCTACAGGGGTATTC
1 TGGTAATTCTACCCTACAGGGGTATTT
*
47318350 CGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
47318377 TGGTAATTCTACCCTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
47318404 AGGTAATTCTACCTTACAGGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* *
47318431 CGGTAATTCTACCCTACAGGGGTATTG
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *
47318458 CGATAATTCTACCCTACAAGGGTATTT
1 TGGTAATTCTACCCTACAGGGGTATTT
* * *** *
47318485 CGGTAATTTTA-TAAACAAAGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
* * **
47318512 TAGTAATTTTA-CAAACAAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
*
47318539 TGGTAATTCTATCCTACAAGGGGTATTT
1 TGGTAATTCTACCCTAC-AGGGGTATTT
47318567 CT-GTAATT
1 -TGGTAATT
47318575 TCACAATCGA
Statistics
Matches: 238, Mismatches: 37, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
26 16 0.07
27 201 0.84
28 20 0.08
29 1 0.00
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (27 bp):
TGGTAATTCTACCCTACAGGGGTATTT
Found at i:47318364 original size:54 final size:54
Alignment explanation
Indices: 47318289--47318574 Score: 324
Period size: 54 Copynumber: 5.3 Consensus size: 54
47318279 TACCCTACAA
* * *
47318289 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTCTATCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTACAGG
* *
47318343 GGTATTCCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTACAGG
* * * *
47318397 GGTATTTAGGTAATTCTACCTTACAGGGGTATTTCGGTAATTCTACCCTACAGG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTACAGG
* * * * * ** *
47318451 GGTATTGCGATAATTCTACCCTACAAGGGTATTTCGGTAATTTTAT-AAACAAAG
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTAC-AGG
** * **
47318505 GGTATTTTAGTAATTTTA-CAAACAAGGGGTATTTTGGTAATTCTATCCTACAAGG
1 GGTATTTCGGTAATTCTACCCTAC-AGGGGTATTTTGGTAATTCTATCCTAC-AGG
*
47318560 GGTATTTCTGTAATT
1 GGTATTTCGGTAATT
47318575 TCACAATCGA
Statistics
Matches: 195, Mismatches: 34, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
53 5 0.03
54 172 0.88
55 18 0.09
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.36
Consensus pattern (54 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTTGGTAATTCTATCCTACAGG
Found at i:47318617 original size:27 final size:27
Alignment explanation
Indices: 47318579--47318776 Score: 254
Period size: 27 Copynumber: 7.3 Consensus size: 27
47318569 GTAATTTCAC
*
47318579 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* *
47318606 AA-CTAAGGGTAAAATGGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTGTA
*
47318633 AATCGAGGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
*
47318660 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
**
47318687 AATCGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * * *
47318714 TATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
* * *
47318741 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTGTA
47318768 AATCGAGGG
1 AATCGAGGG
47318777 CATTTCAGTA
Statistics
Matches: 149, Mismatches: 20, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 147 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTGTA
Found at i:47318790 original size:81 final size:81
Alignment explanation
Indices: 47318579--47318776 Score: 290
Period size: 81 Copynumber: 2.4 Consensus size: 81
47318569 GTAATTTCAC
* * * * *
47318579 AATCGAGGGTAAAACAGTAATTTTGTAAA-CTAAGGGTAAAATGGTAATTTTGTAAATCGAGGGT
1 AATCGAGGGTAAAACGGTAATTCTATAAATC-GAGGGTAAAATAGTAATTTTGTAAATCGAGGGT
*
47318643 AAAACGGTAATTCTGTA
65 AAAACGGTAATTCTATA
* * *
47318660 AATCGAGGGTAAAACGGTAATTTTATAAATCGAGGGTAAAATAGTAATTTTGTATATCGAGGGTG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
47318725 AAACGGTAATTCTATA
66 AAACGGTAATTCTATA
*
47318741 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGG
1 AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGG
47318777 CATTTCAGTA
Statistics
Matches: 107, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
81 106 0.99
82 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.29
Consensus pattern (81 bp):
AATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTA
AAACGGTAATTCTATA
Found at i:47320748 original size:6 final size:6
Alignment explanation
Indices: 47320730--47320807 Score: 79
Period size: 6 Copynumber: 12.8 Consensus size: 6
47320720 CAGAAACATT
*
47320730 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGT ATCAGGTA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A
* * *
47320780 A-CAGA ATCAAA ATCACA ATCAGT ATCAG
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAG
47320808 GTAACAGAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
5 3 0.05
6 53 0.87
7 4 0.07
8 1 0.02
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.19
Consensus pattern (6 bp):
ATCAGA
Found at i:47320788 original size:31 final size:31
Alignment explanation
Indices: 47320750--47320822 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
47320740 GAATCAGAAT
* *
47320750 CAGAATCAGAATCAGAATCAGTATCAGGTAA
1 CAGAATCAAAATCACAATCAGTATCAGGTAA
47320781 CAGAATCAAAATCACAATCAGTATCAGGTAA
1 CAGAATCAAAATCACAATCAGTATCAGGTAA
*
47320812 CAGAATAAAAA
1 CAGAATCAAAA
47320823 ATCAGAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.51, C:0.16, G:0.15, T:0.18
Consensus pattern (31 bp):
CAGAATCAAAATCACAATCAGTATCAGGTAA
Found at i:47321030 original size:26 final size:27
Alignment explanation
Indices: 47320967--47321040 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
47320957 GCTTAGTTAT
* *
47320967 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
47320994 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
47321020 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
47321041 TTAACAGAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:47321225 original size:22 final size:23
Alignment explanation
Indices: 47321197--47321260 Score: 78
Period size: 22 Copynumber: 2.9 Consensus size: 23
47321187 AGGCAAATAC
*
47321197 GGTTGGCACACAGCCATAAT-CA
1 GGTTGGCACAAAGCCATAATGCA
* *
47321219 GGTTGGCACAGAGCCAT-ATGTA
1 GGTTGGCACAAAGCCATAATGCA
*
47321241 GGTTGACACAAAGCCATAAT
1 GGTTGGCACAAAGCCATAAT
47321261 TAGAAGGCTT
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.33, C:0.22, G:0.25, T:0.20
Consensus pattern (23 bp):
GGTTGGCACAAAGCCATAATGCA
Found at i:47321782 original size:27 final size:27
Alignment explanation
Indices: 47321689--47321909 Score: 302
Period size: 27 Copynumber: 8.3 Consensus size: 27
47321679 GGGACAAAAT
* * * *
47321689 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
47321715 GGTAATTCCACCCTACAAGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47321742 AG-AATTCTACCCTACAGGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
47321768 AGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
47321795 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47321822 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47321849 GGTAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
47321876 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
47321903 GGTAATT
1 GGTAATT
47321910 TTATAAACAA
Statistics
Matches: 172, Mismatches: 21, Indels: 3
0.88 0.11 0.02
Matches are distributed among these distances:
26 36 0.21
27 136 0.79
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:47321925 original size:81 final size:81
Alignment explanation
Indices: 47321717--47321936 Score: 246
Period size: 81 Copynumber: 2.7 Consensus size: 81
47321707 GGTATCTCGG
* * * * ** * *
47321717 TAATTCCACCCTACAAGGGTATTT-TAGAATTCTACCCTACAGGGGTATTCCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCC
** *
47321781 TACAGGGGTATTTTGG
66 TACAGGGGTATTACGA
** * *
47321797 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCC
47321862 TACAGGGGTATTACGA
66 TACAGGGGTATTACGA
* * * *
47321878 TAATTCTACCCTACAGGGGTATTTCGGTAATTTTA-TAAACAAAGGGTATTTTAGTAATT
1 TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAAC-AAGGGTATTTCAGTAATT
47321937 TTACAAACAA
Statistics
Matches: 121, Mismatches: 17, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
80 24 0.20
81 97 0.80
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.34
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCGATAATTCTACCAAACAAGGGTATTTCAGTAATTCTACCC
TACAGGGGTATTACGA
Found at i:47321961 original size:54 final size:52
Alignment explanation
Indices: 47321902--47322024 Score: 129
Period size: 54 Copynumber: 2.3 Consensus size: 52
47321892 AGGGGTATTT
* * * *
47321902 CGGTAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAACAAGGAGTATAT
1 CGGTAATTTTATAAAC-AAGGGTATTTCAGTAATTTCACAAACAAGG-GTAAAA
* ** * *
47321956 TGGTAATTTTATCCTACAGGGGTATTTCAGTAATTTCACAATCAAGGGTAAAA
1 CGGTAATTTTAT-AAACAAGGGTATTTCAGTAATTTCACAAACAAGGGTAAAA
*
47322009 CGGTAATTTTGTAAAC
1 CGGTAATTTTATAAAC
47322025 TGAGGGTAAA
Statistics
Matches: 55, Mismatches: 13, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
52 2 0.04
53 14 0.25
54 37 0.67
55 2 0.04
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.35
Consensus pattern (52 bp):
CGGTAATTTTATAAACAAGGGTATTTCAGTAATTTCACAAACAAGGGTAAAA
Found at i:47322003 original size:27 final size:27
Alignment explanation
Indices: 47321892--47322003 Score: 102
Period size: 27 Copynumber: 4.1 Consensus size: 27
47321882 TCTACCCTAC
* *
47321892 AGGGGTATTTCGGTAATTTTATAAACA
1 AGGGGTATTTCAGTAATTTTACAAACA
* *
47321919 AAGGGTATTTTAGTAATTTTACAAACA
1 AGGGGTATTTCAGTAATTTTACAAACA
* * **
47321946 AGGAGTATATT-GGTAATTTTATCCTAC-
1 AGGGGTAT-TTCAGTAATTTTA-CAAACA
* *
47321973 AGGGGTATTTCAGTAATTTCACAATCA
1 AGGGGTATTTCAGTAATTTTACAAACA
47322000 AGGG
1 AGGG
47322004 TAAAACGGTA
Statistics
Matches: 66, Mismatches: 15, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
26 4 0.06
27 57 0.86
28 5 0.08
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.36
Consensus pattern (27 bp):
AGGGGTATTTCAGTAATTTTACAAACA
Found at i:47322076 original size:54 final size:54
Alignment explanation
Indices: 47321995--47322180 Score: 248
Period size: 54 Copynumber: 3.4 Consensus size: 54
47321985 GTAATTTCAC
* * * * * *
47321995 AATCAAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATAGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATC-GAGGGTGAAATGGTAATTCTATA
*
47322049 AATCGATGGTAAAACGGTAATTCTGTAAATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTGAAATGGTAATTCTATA
* * * *
47322103 AATCGAGGGTGAAACGGTAATTTTGTAAATCGAGGGGGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTGAAATGGTAATTCTATA
*
47322157 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
47322181 ACAAATCAAT
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
54 115 0.99
55 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (54 bp):
AATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTGAAATGGTAATTCTATA
Found at i:47322111 original size:81 final size:82
Alignment explanation
Indices: 47321995--47322187 Score: 255
Period size: 81 Copynumber: 2.4 Consensus size: 82
47321985 GTAATTTCAC
* * * * * * *
47321995 AATCAAGGGTAAAACGGTAATTTTGTAAA-CTGAGGGTAAAATAGTAATTTTGTAAATCGATGGT
1 AATCGAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGG
*
47322059 AAAACGGTAATTCTGTA
66 AAAACGGTAATTCTATA
* * *
47322076 AATCGAGGGTGAAATGGTAATTCTATAAATC-GAGGGTGAAACGGTAATTTTGTAAATCGAGGGG
1 AATCGAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGG
*
47322140 GAAACGGTAATTCTATA
66 AAAACGGTAATTCTATA
*
47322157 AATCGAGGGTAAAATGGTAATTCTACAAATC
1 AATCGAGGGTAAAATGGTAATTCTATAAATC
47322188 AATGGCATTT
Statistics
Matches: 97, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
81 96 0.99
82 1 0.01
ACGTcount: A:0.38, C:0.09, G:0.24, T:0.28
Consensus pattern (82 bp):
AATCGAGGGTAAAATGGTAATTCTATAAATCTGAGGGTAAAACAGTAATTTTGTAAATCGAGGGG
AAAACGGTAATTCTATA
Found at i:47322187 original size:27 final size:27
Alignment explanation
Indices: 47321995--47322180 Score: 221
Period size: 27 Copynumber: 6.9 Consensus size: 27
47321985 GTAATTTCAC
* *
47321995 AATCAAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
47322022 AA-CTGAGGGTAAAATAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTCTGTA
*
47322049 AATCGATGGTAAAACGGTAATTCTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* * *
47322076 AATCGAGGGTGAAATGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
* *
47322103 AATCGAGGGTGAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTCTGTA
** *
47322130 AATCGAGGGGGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTCTGTA
*
47322157 AATCGAGGGTAAAATGGTAATTCT
1 AATCGAGGGTAAAACGGTAATTCT
47322181 ACAAATCAAT
Statistics
Matches: 137, Mismatches: 20, Indels: 4
0.85 0.12 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
28 1 0.01
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.29
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTCTGTA
Found at i:47328628 original size:49 final size:49
Alignment explanation
Indices: 47328556--47328656 Score: 184
Period size: 49 Copynumber: 2.1 Consensus size: 49
47328546 TCCTCAGGCG
*
47328556 TGCACGACAATTCATCAAACACTCTGATGGTGTTCTCTAAACAAAACTT
1 TGCACGACAATTCATCAAACACTCTGATGGTATTCTCTAAACAAAACTT
*
47328605 TGCACGACAATTCATTAAACACTCTGATGGTATTCTCTAAACAAAACTT
1 TGCACGACAATTCATCAAACACTCTGATGGTATTCTCTAAACAAAACTT
47328654 TGC
1 TGC
47328657 TTTCTCCGGG
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.30
Consensus pattern (49 bp):
TGCACGACAATTCATCAAACACTCTGATGGTATTCTCTAAACAAAACTT
Found at i:47333915 original size:8 final size:8
Alignment explanation
Indices: 47333870--47334036 Score: 50
Period size: 8 Copynumber: 21.5 Consensus size: 8
47333860 TGAATATACG
47333870 TATTATAT
1 TATTATAT
*
47333878 ATATTTTAT
1 -TATTATAT
*
47333887 AATTAT-T
1 TATTATAT
47333894 TACTTATAT
1 TA-TTATAT
47333903 T-TTAT-T
1 TATTATAT
47333909 ATATTATAT
1 -TATTATAT
47333918 TACTTCATAT
1 TA-TT-ATAT
* *
47333928 TTTTCTAT
1 TATTATAT
*
47333936 TATCATAT
1 TATTATAT
*
47333944 TAATATA-
1 TATTATAT
* *
47333951 TATTTTAA
1 TATTATAT
* *
47333959 CA-CATAT
1 TATTATAT
* *
47333966 CATTA-CT
1 TATTATAT
47333973 TATTAT-T
1 TATTATAT
47333980 TATTATAT
1 TATTATAT
*
47333988 TATGT-TTT
1 TAT-TATAT
* *
47333996 TATCACA-
1 TATTATAT
*
47334003 TAATAT-T
1 TATTATAT
47334010 TA-TATAT
1 TATTATAT
*
47334017 TTTTATAT
1 TATTATAT
47334025 TATTATAT
1 TATTATAT
47334033 TATT
1 TATT
47334037 TTACATTTTA
Statistics
Matches: 113, Mismatches: 29, Indels: 33
0.65 0.17 0.19
Matches are distributed among these distances:
6 4 0.04
7 35 0.31
8 54 0.48
9 15 0.13
10 5 0.04
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:47333937 original size:23 final size:23
Alignment explanation
Indices: 47333877--47333930 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 23
47333867 ACGTATTATA
47333877 TATATTTTA-TA-ATTATTTACT
1 TATATTTTATTATATTATTTACT
47333898 TATATTTTATTATATTATATTACT
1 TATATTTTATTATATTAT-TTACT
47333922 TCATATTTT
1 T-ATATTTT
47333931 TCTATTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 5 0.17
24 6 0.21
25 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (23 bp):
TATATTTTATTATATTATTTACT
Found at i:47333997 original size:40 final size:37
Alignment explanation
Indices: 47333953--47334027 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 37
47333943 TTAATATATA
47333953 TTTTAACACATATCATTACTTAT-TATTTATTATATTATGT
1 TTTTAACACATA--A-TACTTATATATTT-TTATATTATGT
* *
47333993 TTTTATCACATAATATTTATATATTTTTATATTAT
1 TTTTAACACATAATACTTATATATTTTTATATTAT
47334028 TATATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.47
38 6 0.19
40 11 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAACACATAATACTTATATATTTTTATATTATGT
Found at i:47334277 original size:21 final size:22
Alignment explanation
Indices: 47334243--47334286 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
47334233 TATTTCAAAA
*
47334243 TTCATTATTAATT-ACTATGTT
1 TTCATTATTAATTAAATATGTT
47334264 TTCATGTATT-ATTAAATATGTT
1 TTCAT-TATTAATTAAATATGTT
47334286 T
1 T
47334287 ATTATCTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (22 bp):
TTCATTATTAATTAAATATGTT
Found at i:47344058 original size:7 final size:7
Alignment explanation
Indices: 47344048--47344162 Score: 76
Period size: 7 Copynumber: 15.9 Consensus size: 7
47344038 TTCGAAAATC
47344048 AAAAAAG
1 AAAAAAG
47344055 AAAAAA-
1 AAAAAAG
47344061 AACAAACAG
1 AA-AAA-AG
*
47344070 AAAATA-
1 AAAAAAG
*
47344076 AAAAAAC
1 AAAAAAG
*
47344083 AAAAAAC
1 AAAAAAG
*
47344090 AAAAAACA
1 AAAAAA-G
47344098 AAACAAAG
1 AAA-AAAG
47344106 AAAAAA-
1 AAAAAAG
*
47344112 AACAAA-
1 AAAAAAG
47344118 AAAAAAG
1 AAAAAAG
47344125 AAAAAAG
1 AAAAAAG
47344132 AAAAAAG
1 AAAAAAG
*
47344139 AGAGAAGAGG
1 A-A-AA-AAG
47344149 AAAAAAG
1 AAAAAAG
47344156 AGAAAAA
1 A-AAAAA
47344163 TGGAGAGGCC
Statistics
Matches: 89, Mismatches: 8, Indels: 21
0.75 0.07 0.18
Matches are distributed among these distances:
6 17 0.19
7 44 0.49
8 17 0.19
9 8 0.09
10 3 0.03
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (7 bp):
AAAAAAG
Found at i:47344094 original size:42 final size:42
Alignment explanation
Indices: 47344042--47344139 Score: 108
Period size: 42 Copynumber: 2.3 Consensus size: 42
47344032 TGACGTTTCG
* * *
47344042 AAAATCAAAAAAGAAAAAAAACAAACAGAAA-ATAAAAAAACA
1 AAAAACAAAAAAGAAAAAAAACAAA-AAAAACAAAAAAAAACA
* * * *
47344084 AAAAACAAAAAACAAAACAAAGAAAAAAAACAAAAAAAAAGA
1 AAAAACAAAAAAGAAAAAAAACAAAAAAAACAAAAAAAAACA
*
47344126 AAAAAGAAAAAAGA
1 AAAAACAAAAAAGA
47344140 GAGAAGAGGA
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
41 4 0.09
42 42 0.91
ACGTcount: A:0.84, C:0.08, G:0.06, T:0.02
Consensus pattern (42 bp):
AAAAACAAAAAAGAAAAAAAACAAAAAAAACAAAAAAAAACA
Found at i:47344124 original size:19 final size:19
Alignment explanation
Indices: 47344048--47344137 Score: 94
Period size: 19 Copynumber: 4.6 Consensus size: 19
47344038 TTCGAAAATC
*
47344048 AAAAAAGAAAAAAAACAAAC
1 AAAAAA-AAAAAAAACAAAG
* *
47344068 AGAAAATAAAAAAACAAA-
1 AAAAAAAAAAAAAACAAAG
*
47344086 AAACAAAAAACAAAACAAAG
1 AAA-AAAAAAAAAAACAAAG
47344106 AAAAAAAACAAAAAA-AAAG
1 AAAAAAAA-AAAAAACAAAG
47344125 AAAAAAGAAAAAA
1 AAAAAA-AAAAAA
47344138 GAGAGAAGAG
Statistics
Matches: 60, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
18 2 0.03
19 43 0.72
20 15 0.25
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.01
Consensus pattern (19 bp):
AAAAAAAAAAAAAACAAAG
Found at i:47344144 original size:18 final size:17
Alignment explanation
Indices: 47344048--47344162 Score: 76
Period size: 17 Copynumber: 6.8 Consensus size: 17
47344038 TTCGAAAATC
*
47344048 AAAAAAGAAAAAAAACA
1 AAAAAAGAGAAAAAACA
*
47344065 AACAGAAA-ATAAAAAA-A
1 AA-A-AAAGAGAAAAAACA
* *
47344082 CAAAAA-ACAAAAAACA
1 AAAAAAGAGAAAAAACA
*
47344098 AAACAAAGAAAAAAAACA
1 AAA-AAAGAGAAAAAACA
* *
47344116 AAAAAAAAGAAAAAA-G
1 AAAAAAGAGAAAAAACA
* * **
47344132 AAAAAAGAGAGAAGAGG
1 AAAAAAGAGAAAAAACA
47344149 AAAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
47344163 TGGAGAGGCC
Statistics
Matches: 79, Mismatches: 13, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
15 10 0.13
16 16 0.20
17 30 0.38
18 20 0.25
19 3 0.04
ACGTcount: A:0.82, C:0.06, G:0.11, T:0.01
Consensus pattern (17 bp):
AAAAAAGAGAAAAAACA
Found at i:47344154 original size:1 final size:1
Alignment explanation
Indices: 47344048--47344137 Score: 63
Period size: 1 Copynumber: 90.0 Consensus size: 1
47344038 TTCGAAAATC
* * * * * * * * * *
47344048 AAAAAAGAAAAAAAACAAACAGAAAATAAAAAAACAAAAAACAAAAAACAAAACAAAGAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
47344113 ACAAAAAAAAAGAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
47344138 GAGAGAAGAG
Statistics
Matches: 63, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.86, C:0.08, G:0.06, T:0.01
Consensus pattern (1 bp):
A
Found at i:47345392 original size:206 final size:205
Alignment explanation
Indices: 47345029--47345584 Score: 783
Period size: 206 Copynumber: 2.7 Consensus size: 205
47345019 GCAAATCGGG
* *
47345029 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAAGAACAAATCAAAGACATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCT
* * *
47345094 AATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
64 GATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
* * **
47345159 AGAACAAATCAAAGTTTGGCGTCTCCATATTCGACAG-AGAGCAGATACATAGCAGATCTGGCCT
129 AGAACAAATCAAAGTTTGGCATCTCCATATTCGACAGAAG-GCAGACACATAGCAGATCTAACCT
* *
47345223 TCAGATGTTTATA
193 TCAGATGATTAAA
* * *
47345236 CTGAAGCAGATCCAAGATGATTTGGCATCCTTATGTTTACAAGGAACAAATCGAAATCATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAA-CATAGCTG
* *
47345301 ATTTAGCTTTCACGTGCTTACGCTGAAACAAGTCTAAGATGATTTGGCATCTCTATATTGTCAGA
65 ATTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAGA
* * *
47345366 GAACAAGTCGAAGTTTGGCATCTCCATATTCGACGGAAGGCAGACACATAGCAGATCTAACCTTC
130 GAACAAATCAAAGTTTGGCATCTCCATATTCGACAGAAGGCAGACACATAGCAGATCTAACCTTC
47345431 AGATGATTAAA
195 AGATGATTAAA
** * * *
47345442 CTGAAGCAGATCCAAGATGGGGTGGTATCATTGTGCTTACAAGGAGCAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAA-ACATAGCTG
* * ** *
47345507 ATTTGGTTTTCGCGTGCTTACGCT-AAAGCAAATCTAAGATGATTTGGCATCTCCGTATTGTTAG
65 ATTTGGCTTTCACGTGCTTACGCTGAAA-CAAATCTAAGATGATTTGGCATCTCTATATTGTCAG
47345571 AGAACAAATCAAAG
129 AGAACAAATCAAAG
47345585 AAGCAGATTT
Statistics
Matches: 309, Mismatches: 36, Indels: 9
0.87 0.10 0.03
Matches are distributed among these distances:
205 4 0.01
206 295 0.95
207 10 0.03
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.28
Consensus pattern (205 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAACATAGCTGA
TTTGGCTTTCACGTGCTTACGCTGAAACAAATCTAAGATGATTTGGCATCTCTATATTGTCAGAG
AACAAATCAAAGTTTGGCATCTCCATATTCGACAGAAGGCAGACACATAGCAGATCTAACCTTCA
GATGATTAAA
Found at i:47347403 original size:8 final size:8
Alignment explanation
Indices: 47347358--47347524 Score: 50
Period size: 8 Copynumber: 21.5 Consensus size: 8
47347348 TGAATATACG
47347358 TATTATAT
1 TATTATAT
*
47347366 ATATTTTAT
1 -TATTATAT
*
47347375 AATTAT-T
1 TATTATAT
47347382 TACTTATAT
1 TA-TTATAT
47347391 T-TTAT-T
1 TATTATAT
47347397 ATATTATAT
1 -TATTATAT
47347406 TACTTCATAT
1 TA-TT-ATAT
* *
47347416 TTTTCTAT
1 TATTATAT
*
47347424 TATCATAT
1 TATTATAT
*
47347432 TAATATA-
1 TATTATAT
* *
47347439 TATTTTAA
1 TATTATAT
* *
47347447 CA-CATAT
1 TATTATAT
* *
47347454 CATTA-CT
1 TATTATAT
47347461 TATTAT-T
1 TATTATAT
47347468 TATTATAT
1 TATTATAT
*
47347476 TATGT-TTT
1 TAT-TATAT
* *
47347484 TATCACA-
1 TATTATAT
*
47347491 TAATAT-T
1 TATTATAT
47347498 TA-TATAT
1 TATTATAT
*
47347505 TTTTATAT
1 TATTATAT
47347513 TATTATAT
1 TATTATAT
47347521 TATT
1 TATT
47347525 TTACATTTTA
Statistics
Matches: 113, Mismatches: 29, Indels: 33
0.65 0.17 0.19
Matches are distributed among these distances:
6 4 0.04
7 35 0.31
8 54 0.48
9 15 0.13
10 5 0.04
ACGTcount: A:0.34, C:0.07, G:0.01, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:47347425 original size:23 final size:23
Alignment explanation
Indices: 47347365--47347418 Score: 76
Period size: 21 Copynumber: 2.3 Consensus size: 23
47347355 ACGTATTATA
47347365 TATATTTTA-TA-ATTATTTACT
1 TATATTTTATTATATTATTTACT
47347386 TATATTTTATTATATTATATTACT
1 TATATTTTATTATATTAT-TTACT
47347410 TCATATTTT
1 T-ATATTTT
47347419 TCTATTATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
21 9 0.31
22 2 0.07
23 5 0.17
24 6 0.21
25 7 0.24
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (23 bp):
TATATTTTATTATATTATTTACT
Found at i:47347485 original size:40 final size:37
Alignment explanation
Indices: 47347441--47347515 Score: 89
Period size: 37 Copynumber: 1.9 Consensus size: 37
47347431 TTAATATATA
47347441 TTTTAACACATATCATTACTTAT-TATTTATTATATTATGT
1 TTTTAACACATA--A-TACTTATATATTT-TTATATTATGT
* *
47347481 TTTTATCACATAATATTTATATATTTTTATATTAT
1 TTTTAACACATAATACTTATATATTTTTATATTAT
47347516 TATATTATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
37 15 0.47
38 6 0.19
40 11 0.34
ACGTcount: A:0.33, C:0.08, G:0.01, T:0.57
Consensus pattern (37 bp):
TTTTAACACATAATACTTATATATTTTTATATTATGT
Found at i:47351222 original size:17 final size:17
Alignment explanation
Indices: 47351200--47351243 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
47351190 TAGGCCGGAA
47351200 TGGGCCCCACGGGCTTG
1 TGGGCCCCACGGGCTTG
*
47351217 TGGGCCCCATGGGCTTG
1 TGGGCCCCACGGGCTTG
47351234 TGGGCCCCAC
1 TGGGCCCCAC
47351244 ACGGGTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.07, C:0.36, G:0.39, T:0.18
Consensus pattern (17 bp):
TGGGCCCCACGGGCTTG
Found at i:47352672 original size:43 final size:44
Alignment explanation
Indices: 47352578--47352736 Score: 162
Period size: 43 Copynumber: 3.7 Consensus size: 44
47352568 TTACGCCATA
* * ** * *
47352578 TCCCAGATATGGTCTTACATGTTATCAC-ATATCGATGCCACTA
1 TCCCAGACATGGTCTTACATGTAATCACAATAAAGATGCCAATG
* * * * *
47352621 TCCTAGACAGGGTTTTACATGAAATC-GAATAAAGATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAATAAAGATGCCAATG
* * *
47352664 TCCCAGACATGGTCTTACACGTATTCACAATACA-ATGCCAATG
1 TCCCAGACATGGTCTTACATGTAATCACAATAAAGATGCCAATG
*
47352707 TCCCAGGCATGGTCTTACATGTAATCACAA
1 TCCCAGACATGGTCTTACATGTAATCACAA
47352737 CTCAGCAACC
Statistics
Matches: 92, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
43 87 0.95
44 5 0.05
ACGTcount: A:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACATGTAATCACAATAAAGATGCCAATG
Found at i:47365932 original size:61 final size:61
Alignment explanation
Indices: 47365837--47365951 Score: 221
Period size: 61 Copynumber: 1.9 Consensus size: 61
47365827 TATTTGAGTA
47365837 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
1 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
*
47365898 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGTATTAC
1 ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTAC
47365952 TTTTGAGAAA
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.51, C:0.04, G:0.17, T:0.28
Consensus pattern (61 bp):
ATTTTATGGGATATTAATGTAATAAAAGAAAATGAAAGAAAGAAAAAGCATTACCATTGTC
Found at i:47370210 original size:13 final size:13
Alignment explanation
Indices: 47370192--47370217 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47370182 TTTTTATTTT
47370192 TTAACATAAAATA
1 TTAACATAAAATA
47370205 TTAACATAAAATA
1 TTAACATAAAATA
47370218 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAACATAAAATA
Found at i:47370622 original size:27 final size:27
Alignment explanation
Indices: 47370580--47370782 Score: 165
Period size: 27 Copynumber: 7.5 Consensus size: 27
47370570 CATGACAACT
* * *
47370580 AAGAATAGCCTCTATGGCAAACTCTTA
1 AAGAATAGCCTTTATGGCGAACTCTAA
* * *
47370607 ATGAATAGTCTTTATGGCGTACTCTAA
1 AAGAATAGCCTTTATGGCGAACTCTAA
* ** * *
47370634 AAGAATAGACTTTATGATGAACTTTGA
1 AAGAATAGCCTTTATGGCGAACTCTAA
** *
47370661 AAGAATAGCCTTTATGATGAACTCTGA
1 AAGAATAGCCTTTATGGCGAACTCTAA
* *
47370688 AAGAATAGACCTTTTTGGCAAACTCTAA
1 AAGAATAG-CCTTTATGGCGAACTCTAA
* * * *
47370716 AAGAATAGACTTTATGGCGACCTTTGA
1 AAGAATAGCCTTTATGGCGAACTCTAA
* * * *
47370743 AAGAATAACCTTTGTTGCGAACTTTAAA
1 AAGAATAGCCTTTATGGCGAACTCT-AA
47370771 AAGAAT-GCCTTT
1 AAGAATAGCCTTT
47370783 CTGACAAACT
Statistics
Matches: 141, Mismatches: 33, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
27 112 0.79
28 29 0.21
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.31
Consensus pattern (27 bp):
AAGAATAGCCTTTATGGCGAACTCTAA
Found at i:47370773 original size:55 final size:55
Alignment explanation
Indices: 47370609--47370776 Score: 162
Period size: 55 Copynumber: 3.1 Consensus size: 55
47370599 AACTCTTAAT
* * * * * ** *
47370609 GAATAGTCTTTATGGCGTACTCTAAAAGAATAGA-CTTTATGATGAACTTTGAAA
1 GAATAGACTTTATGACGAACTCTGAAAGAATAGACCTTTTTGGCGAACTTTAAAA
* * * *
47370663 GAATAGCCTTTATGATGAACTCTGAAAGAATAGACCTTTTTGGCAAACTCTAAAA
1 GAATAGACTTTATGACGAACTCTGAAAGAATAGACCTTTTTGGCGAACTTTAAAA
* * *
47370718 GAATAGACTTTATGGCGACCTTTGAAAGAATA-ACCTTTGTT-GCGAACTTTAAAAA
1 GAATAGACTTTATGACGAACTCTGAAAGAATAGACCTTT-TTGGCGAACTTT-AAAA
47370773 GAAT
1 GAAT
47370777 GCCTTTCTGA
Statistics
Matches: 93, Mismatches: 18, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
54 42 0.45
55 51 0.55
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (55 bp):
GAATAGACTTTATGACGAACTCTGAAAGAATAGACCTTTTTGGCGAACTTTAAAA
Found at i:47372718 original size:23 final size:23
Alignment explanation
Indices: 47372692--47372736 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
47372682 TGTTGGATAC
47372692 TTAGTTTATTCTACTTGTCCATT
1 TTAGTTTATTCTACTTGTCCATT
47372715 TTAGTTTATTCTACTTGTCCAT
1 TTAGTTTATTCTACTTGTCCAT
47372737 ACATTATCTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.18, G:0.09, T:0.56
Consensus pattern (23 bp):
TTAGTTTATTCTACTTGTCCATT
Found at i:47373056 original size:28 final size:28
Alignment explanation
Indices: 47373020--47373081 Score: 97
Period size: 28 Copynumber: 2.2 Consensus size: 28
47373010 AGATCGTCCT
*
47373020 AAAGACTTTCCTTTCAGAGATTTGCCAC
1 AAAGGCTTTCCTTTCAGAGATTTGCCAC
* *
47373048 AAAGGCTTTCCTTTCATAGATTTTCCAC
1 AAAGGCTTTCCTTTCAGAGATTTGCCAC
47373076 AAAGGC
1 AAAGGC
47373082 GTTCTTAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.32
Consensus pattern (28 bp):
AAAGGCTTTCCTTTCAGAGATTTGCCAC
Found at i:47373196 original size:28 final size:28
Alignment explanation
Indices: 47373020--47373204 Score: 82
Period size: 28 Copynumber: 6.5 Consensus size: 28
47373010 AGATCGTCCT
* *
47373020 AAAGACTTTCCTT-TCAGAGATTTGCCAC
1 AAAGGCTTTCCTTCT-AGAGTTTTGCCAC
47373048 AAAGGCTTTCCTTTCATAGA-TTTT-CCAC
1 AAAGGCTTTCC-TTC-TAGAGTTTTGCCAC
* * * *
47373076 AAAGGCGTT-CTTAAATAGAG-GTTGTCAC
1 AAAGGCTTTCCTT--CTAGAGTTTTGCCAC
* **
47373104 AAAGGCTTGTCTTTCTAGAGTTTCACCAC
1 AAAGGCTT-TCCTTCTAGAGTTTTGCCAC
* * *
47373133 AAAGGCATATTTTACATTC-A-A-TACTCGCCAC
1 AAAGGC----TTT-CCTTCTAGAGT-TTTGCCAC
47373164 AAAGGCTTTCCTTCTAGAGTTTTGCCAC
1 AAAGGCTTTCCTTCTAGAGTTTTGCCAC
47373192 AAAGG-TTGTCCTT
1 AAAGGCTT-TCCTT
47373205 TACATCTAGT
Statistics
Matches: 118, Mismatches: 19, Indels: 40
0.67 0.11 0.23
Matches are distributed among these distances:
26 6 0.05
27 13 0.11
28 54 0.46
29 17 0.14
30 6 0.05
31 14 0.12
32 2 0.02
33 6 0.05
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.34
Consensus pattern (28 bp):
AAAGGCTTTCCTTCTAGAGTTTTGCCAC
Found at i:47373445 original size:53 final size:53
Alignment explanation
Indices: 47373353--47373459 Score: 135
Period size: 53 Copynumber: 2.0 Consensus size: 53
47373343 TTAAATTTCT
* *
47373353 CCATATGATGCCATAACCCACCAATTCTGATCTTGCATGATATGATCTTCTTC
1 CCATATGATGCCATAACCCACCAATTCAGATCTTACATGATATGATCTTCTTC
* * * * *
47373406 CCATATGATGCCATAATCCACTAGTTACAG-TCTTACATGATATGGTTTTCTTC
1 CCATATGATGCCATAACCCACCAATT-CAGATCTTACATGATATGATCTTCTTC
47373459 C
1 C
47373460 TATCATAACC
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
53 44 0.96
54 2 0.04
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.36
Consensus pattern (53 bp):
CCATATGATGCCATAACCCACCAATTCAGATCTTACATGATATGATCTTCTTC
Found at i:47391036 original size:21 final size:20
Alignment explanation
Indices: 47390996--47391036 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
47390986 ATATGAATGA
47390996 ATTTTGATGATTGATGATAG
1 ATTTTGATGATTGATGATAG
* *
47391016 ATTTTGAATGGTTGTTGATAG
1 ATTTTG-ATGATTGATGATAG
47391037 TGAAACAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (20 bp):
ATTTTGATGATTGATGATAG
Found at i:47398330 original size:18 final size:18
Alignment explanation
Indices: 47398303--47398348 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
47398293 CGAAGCAACG
*
47398303 ATCA-CAAAAACGTAAAA
1 ATCATCAAAAACCTAAAA
*
47398320 ATCATCAAAAACCTAGAA
1 ATCATCAAAAACCTAAAA
47398338 ATCATCAAAAA
1 ATCATCAAAAA
47398349 TCGAGTCAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 4 0.15
18 22 0.85
ACGTcount: A:0.61, C:0.20, G:0.04, T:0.15
Consensus pattern (18 bp):
ATCATCAAAAACCTAAAA
Found at i:47403324 original size:46 final size:46
Alignment explanation
Indices: 47403271--47403440 Score: 161
Period size: 47 Copynumber: 3.6 Consensus size: 46
47403261 GACAAGGGCT
47403271 AGTGTAAGACATGTCCGGGACATGCATCGGCCT-CGAGACCT-A-AGCC
1 AGTGTAAGACATGTCCGGGACATGCATCGG-CTACGAGA--TGATAGCC
* *
47403317 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGATAGTC
1 AGTGTAAGACATGTCCGGGACATGCATCGGCTACGAGATGATAGCC
* * * *
47403363 AGTGTAAGACCATGTCGGGGACATGGCATCGACT-TGAAAT-ATGAGCC
1 AGTGTAAGA-CATGTCCGGGACAT-GCATCGGCTACGAGATGAT-AGCC
**
47403410 AGTGTAAGACCATGTCTAGGACATGGCATCG
1 AGTGTAAGA-CATGTCCGGGACAT-GCATCG
47403441 ACACCTTACC
Statistics
Matches: 109, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
44 1 0.01
45 3 0.03
46 48 0.44
47 49 0.45
48 8 0.07
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (46 bp):
AGTGTAAGACATGTCCGGGACATGCATCGGCTACGAGATGATAGCC
Found at i:47403384 original size:93 final size:94
Alignment explanation
Indices: 47403271--47403440 Score: 229
Period size: 93 Copynumber: 1.8 Consensus size: 94
47403261 GACAAGGGCT
* * * *
47403271 AGTGTAAGACATGTCCGGGACAT-GCATCGGCCTCGAGACCTAAGCCAGTGTAAGA-CATGTCTG
1 AGTGTAAGACATGTCCGGGACATGGCATC-GACTCGAAACATAAGCCAGTGTAAGACCATGTCTA
47403334 GGACAT-GCATCGGCTACGAGATGATAGTC
65 GGACATGGCATCGGCTACGAGATGATAGTC
* * * *
47403363 AGTGTAAGACCATGTCGGGGACATGGCATCGACTTGAAATATGAGCCAGTGTAAGACCATGTCTA
1 AGTGTAAGA-CATGTCCGGGACATGGCATCGACTCGAAACATAAGCCAGTGTAAGACCATGTCTA
47403428 GGACATGGCATCG
65 GGACATGGCATCG
47403441 ACACCTTACC
Statistics
Matches: 66, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
92 9 0.14
93 33 0.50
94 18 0.27
95 6 0.09
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.21
Consensus pattern (94 bp):
AGTGTAAGACATGTCCGGGACATGGCATCGACTCGAAACATAAGCCAGTGTAAGACCATGTCTAG
GACATGGCATCGGCTACGAGATGATAGTC
Found at i:47403413 original size:47 final size:48
Alignment explanation
Indices: 47403313--47403442 Score: 169
Period size: 47 Copynumber: 2.8 Consensus size: 48
47403303 TCGAGACCTA
* *
47403313 AGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTACGAGATGAT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAAATGAT
* * *
47403359 AGTCAGTGTAAGACCATGTCGGGGACATGGCATCGACT-TGAAAT-AT
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAAATGAT
*
47403405 GAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGAC
1 -AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGAC
47403443 ACCTTACCTT
Statistics
Matches: 73, Mismatches: 8, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
46 14 0.19
47 51 0.70
48 8 0.11
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.22
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACTACGAAATGAT
Found at i:47403424 original size:140 final size:141
Alignment explanation
Indices: 47403171--47403440 Score: 314
Period size: 140 Copynumber: 1.9 Consensus size: 141
47403161 GTCCCTTGTG
* * * *
47403171 TAAGCTAGTATAAGACATGTTTGGGACATGCATCGGCCACATTATGAGAACCAGTGTAGGACCAT
1 TAAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAACCAGTGTAAGACCAT
** * * * * *
47403236 GTTTGGGACATGGCATTAGCATTGAGACAAGGGCTAGTGTAAGACATGTCCGGGACAT-GCATCG
66 GTCGGGGACATGGCATGAGCATTGAAACAAGAGCCAGTGTAAGACATGTCCAGGACATGGCATCG
47403300 GCCTCGAGACC
131 GCCTCGAGACC
* * * **
47403311 TAAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GATGATAGTCAGTGTAAGACCA
1 TAAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCAC-ATGATGAGAACCAGTGTAAGACCA
* * *
47403375 TGTCGGGGACATGGCATCGA-C-TTGAAATATGAGCCAGTGTAAGACCATGTCTAGGACATGGCA
65 TGTCGGGGACATGGCAT-GAGCATTGAAACAAGAGCCAGTGTAAGA-CATGTCCAGGACATGGCA
47403438 TCG
128 TCG
47403441 ACACCTTACC
Statistics
Matches: 107, Mismatches: 19, Indels: 7
0.80 0.14 0.05
Matches are distributed among these distances:
139 18 0.17
140 81 0.76
141 8 0.07
ACGTcount: A:0.29, C:0.20, G:0.29, T:0.23
Consensus pattern (141 bp):
TAAGCCAGTATAAGACATGTCTGGGACATGCATCGGCCACATGATGAGAACCAGTGTAAGACCAT
GTCGGGGACATGGCATGAGCATTGAAACAAGAGCCAGTGTAAGACATGTCCAGGACATGGCATCG
GCCTCGAGACC
Found at i:47414119 original size:13 final size:12
Alignment explanation
Indices: 47414099--47414134 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
47414089 TTTGCTAGTT
47414099 AATTAATTATTC
1 AATTAATTATTC
*
47414111 AATTTAATTATTG
1 AA-TTAATTATTC
47414124 AATTAATTATT
1 AATTAATTATT
47414135 TGGTTTAATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (12 bp):
AATTAATTATTC
Found at i:47414866 original size:23 final size:22
Alignment explanation
Indices: 47414840--47414888 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 22
47414830 AAGTAATGAT
47414840 TAAA-ATATCATTATGTTACAAAG
1 TAAATATAT-ATTATGTTA-AAAG
*
47414863 TAAATTATATATTATTTTAAAAG
1 TAAA-TATATATTATGTTAAAAG
47414886 TAA
1 TAA
47414889 TTTTTTCTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 11 0.48
24 8 0.35
25 4 0.17
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (22 bp):
TAAATATATATTATGTTAAAAG
Found at i:47417694 original size:27 final size:26
Alignment explanation
Indices: 47417639--47417717 Score: 79
Period size: 26 Copynumber: 3.0 Consensus size: 26
47417629 ATTATTTTAA
*
47417639 TATTAAATTAATATAATATTTATCTT
1 TATTAAATTAATATAATATTAATCTT
* *
47417665 TATTAGATTAAATTTAATATTAAATC-T
1 TATTAAATT-AATATAATATT-AATCTT
* * *
47417692 TATTAAAATAATATAATGTTTATCTT
1 TATTAAATTAATATAATATTAATCTT
47417718 GTAGATAAAC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
25 3 0.07
26 18 0.43
27 18 0.43
28 3 0.07
ACGTcount: A:0.43, C:0.04, G:0.03, T:0.51
Consensus pattern (26 bp):
TATTAAATTAATATAATATTAATCTT
Found at i:47418590 original size:30 final size:30
Alignment explanation
Indices: 47418556--47418653 Score: 92
Period size: 30 Copynumber: 3.2 Consensus size: 30
47418546 TATTAAAATC
47418556 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
* ** ** * *
47418586 ACAAATAAAATCAATAATC-CA-TATTAAAATC
1 ACAAATACAAT---TTTTCTCATTAGCAAATTT
47418617 ACAAATACAATTTTTCTCATTAGCAAATTT
1 ACAAATACAATTTTTCTCATTAGCAAATTT
47418647 ACAAATA
1 ACAAATA
47418654 AAATCAGCAA
Statistics
Matches: 49, Mismatches: 14, Indels: 10
0.67 0.19 0.14
Matches are distributed among these distances:
28 3 0.06
29 2 0.04
30 23 0.47
31 16 0.33
32 2 0.04
33 3 0.06
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (30 bp):
ACAAATACAATTTTTCTCATTAGCAAATTT
Found at i:47418607 original size:61 final size:61
Alignment explanation
Indices: 47418538--47418659 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
47418528 TTTTCACCAT
47418538 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
47418599 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
1 ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
47418660 GCAATCCTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (61 bp):
ATAATCCATATTAAAATCACAAATACAATTTTTCTCATTAGCAAATTTACAAATAAAATCA
Found at i:47422780 original size:43 final size:43
Alignment explanation
Indices: 47422729--47422814 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
47422719 TCATATTTCA
*
47422729 TTTCTCATCTCATAATCATTTCTCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
* *
47422772 TTTCTCATCTTATATTCATTTATCATATTTTCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
47422815 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTTCCATTTCAATAT
Found at i:47423239 original size:25 final size:25
Alignment explanation
Indices: 47423211--47423258 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
47423201 AATACACATC
*
47423211 TATACATAATCAATACATTTCATAA
1 TATACAAAATCAATACATTTCATAA
*
47423236 TATACAAAATCAATCCATTTCAT
1 TATACAAAATCAATACATTTCAT
47423259 TTCAATTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.46, C:0.19, G:0.00, T:0.35
Consensus pattern (25 bp):
TATACAAAATCAATACATTTCATAA
Found at i:47426045 original size:45 final size:47
Alignment explanation
Indices: 47425939--47426106 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 47
47425929 GAGGCTGGCA
* * *
47425939 CCATGT-CCAAACATGGTCTTACACTAGCTCTCACATATCCGTA-CCGATG
1 CCATGTCCCAGACATGGTCTTACACT-G--CACACATCT-CGTAGCCGATG
*
47425988 CCATGTCCCAGACATGGTCTTACACTG-ACACATTTCGTAGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTAGCCGATG
* * * * *
47426034 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTC-AATGCAGATG
1 CCATGTCCCAGACATGGTCTTACACT-GCACACATCTCGTA-GCCGATG
47426080 CCATGTCCCAGACATGGTCTTACACTG
1 CCATGTCCCAGACATGGTCTTACACTG
47426107 GCTCTCCAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 16
0.80 0.07 0.12
Matches are distributed among these distances:
44 10 0.10
45 20 0.19
46 23 0.22
47 15 0.15
48 10 0.10
49 7 0.07
50 18 0.17
ACGTcount: A:0.24, C:0.32, G:0.17, T:0.27
Consensus pattern (47 bp):
CCATGTCCCAGACATGGTCTTACACTGCACACATCTCGTAGCCGATG
Found at i:47426111 original size:48 final size:46
Alignment explanation
Indices: 47425984--47426112 Score: 149
Period size: 45 Copynumber: 2.8 Consensus size: 46
47425974 TATCCGTACC
* * * *
47425984 GATGCCATGTCCCAGACATGGTCTTACACTGACACAT-TTCGTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCTTCATAGCA
*
47426030 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCA-ATGCA
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC-T-TCATA-GCA
47426076 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC
47426113 CAATAACCCG
Statistics
Matches: 71, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
43 1 0.01
44 12 0.17
45 16 0.23
46 12 0.17
47 14 0.20
48 16 0.23
ACGTcount: A:0.22, C:0.31, G:0.19, T:0.27
Consensus pattern (46 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCTTCATAGCA
Found at i:47434052 original size:18 final size:20
Alignment explanation
Indices: 47434017--47434053 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
47434007 AGTATAATCC
*
47434017 AAGCTAACTCGATGTTCCAT
1 AAGCTAACTCCATGTTCCAT
47434037 AAGCTAA-TCCAT-TTCCA
1 AAGCTAACTCCATGTTCCA
47434054 AAATTAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 5 0.31
19 4 0.25
20 7 0.44
ACGTcount: A:0.32, C:0.27, G:0.11, T:0.30
Consensus pattern (20 bp):
AAGCTAACTCCATGTTCCAT
Found at i:47435800 original size:25 final size:24
Alignment explanation
Indices: 47435766--47435820 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
47435756 TTTTTTAGAT
47435766 TAAAACAAAAATAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
47435790 TAAAACAAAAATAGGTTTTGTTTG
1 TAAAACAAAAATAGGTTTTGTTTG
*
47435814 GAAAACA
1 TAAAACA
47435821 GTTTTCACAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.05, G:0.16, T:0.33
Consensus pattern (24 bp):
TAAAACAAAAATAGGTTTTGTTTG
Found at i:47437993 original size:27 final size:27
Alignment explanation
Indices: 47437955--47438009 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
47437945 ATCCCACTCG
47437955 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
47437982 TCCACAAAGACGGCAATGAAACTGGCA
1 TCCACAAAGACGGCAATGAAACTGGCA
47438009 T
1 T
47438010 GAAAACTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.25, G:0.22, T:0.13
Consensus pattern (27 bp):
TCCACAAAGACGGCAATGAAACTGGCA
Found at i:47438686 original size:25 final size:24
Alignment explanation
Indices: 47438657--47438708 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
47438647 AAACAAATTC
*
47438657 AAAGAAGAGAA-AGA-AAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
47438679 AAAGAAGAGAATACAGAAAAAACA
1 AAAGAAGAGAATACAGAAAAAACA
47438703 AAAGAA
1 AAAGAA
47438709 AAAAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 11 0.41
23 2 0.07
24 14 0.52
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (24 bp):
AAAGAAGAGAATACAGAAAAAACA
Found at i:47438716 original size:11 final size:12
Alignment explanation
Indices: 47438666--47438720 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
47438656 CAAAGAAGAG
47438666 AAAGAAAAAAACA
1 AAAG-AAAAAACA
* *
47438679 AAAGAAGAGAA-T
1 AAAGAA-AAAACA
*
47438691 ACAGAAAAAACA
1 AAAGAAAAAACA
47438703 AAAGAAAAAA-A
1 AAAGAAAAAACA
47438714 AAAGAAA
1 AAAGAAA
47438721 CGTGAAGGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
11 11 0.32
12 16 0.47
13 7 0.21
ACGTcount: A:0.80, C:0.05, G:0.13, T:0.02
Consensus pattern (12 bp):
AAAGAAAAAACA
Found at i:47443517 original size:20 final size:20
Alignment explanation
Indices: 47443492--47443537 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
47443482 TTTTACAAAT
47443492 TTTCATTTTGACCCCTAAAC
1 TTTCATTTTGACCCCTAAAC
*
47443512 TTTCATTTTGACCCCTAAAT
1 TTTCATTTTGACCCCTAAAC
47443532 TTTCAT
1 TTTCAT
47443538 CTCGTAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.24, C:0.26, G:0.04, T:0.46
Consensus pattern (20 bp):
TTTCATTTTGACCCCTAAAC
Found at i:47459154 original size:16 final size:16
Alignment explanation
Indices: 47459133--47459189 Score: 87
Period size: 16 Copynumber: 3.6 Consensus size: 16
47459123 TTTGGTTCGC
*
47459133 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
47459149 TGTATTGGATTAGAGG
1 TGTAATGGATTAGAGG
*
47459165 TGTAATGGAATAGAGG
1 TGTAATGGATTAGAGG
47459181 TGTAATGGA
1 TGTAATGGA
47459190 AAAGCTGTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 39 1.00
ACGTcount: A:0.30, C:0.00, G:0.37, T:0.33
Consensus pattern (16 bp):
TGTAATGGATTAGAGG
Found at i:47459456 original size:18 final size:17
Alignment explanation
Indices: 47459435--47459469 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
47459425 TTATTATTAA
*
47459435 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
47459453 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
47459470 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:47459606 original size:16 final size:16
Alignment explanation
Indices: 47459569--47459610 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
47459559 TTAATCATAT
*
47459569 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
47459585 TT-AAATATATTATAA
1 TTAAAATATATTATAA
47459600 TTAAAATATAT
1 TTAAAATATAT
47459611 AATTTAATAN
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:47459608 original size:154 final size:156
Alignment explanation
Indices: 47459322--47459619 Score: 546
Period size: 154 Copynumber: 1.9 Consensus size: 156
47459312 TAGAATACCC
47459322 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
47459387 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
47459452 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAATAA
* *
47459479 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
47459542 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
47459607 ATATAATTTAATA
131 ATATAATTTAATA
47459620 NNNNNNNNNN
Statistics
Matches: 138, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
154 77 0.56
155 1 0.01
157 60 0.43
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.47
Consensus pattern (156 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAATAA
Found at i:47459617 original size:14 final size:15
Alignment explanation
Indices: 47459578--47459619 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
47459568 TTTAAACATA
*
47459578 ATTATTATTAAATAT
1 ATTATAATTAAATAT
47459593 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
47459607 A-TATAATTTAATA
1 ATTATAATTAAATA
47459620 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:47467530 original size:19 final size:18
Alignment explanation
Indices: 47467460--47467531 Score: 56
Period size: 19 Copynumber: 3.7 Consensus size: 18
47467450 CCAGTTCAAG
47467460 TTTTTATGACTTTTTAAATAA
1 TTTTTATGA--TTTT-AATAA
* *
47467481 TTTTTATAACTTTATATCAA
1 TTTTTATGATTTTA-AT-AA
*
47467501 TTTTAAT-ATTTCTAATAA
1 TTTTTATGATTT-TAATAA
47467519 TTTTTATGATTTT
1 TTTTTATGATTTT
47467532 TATAGAATTT
Statistics
Matches: 42, Mismatches: 5, Indels: 11
0.72 0.09 0.19
Matches are distributed among these distances:
18 10 0.24
19 14 0.33
20 10 0.24
21 8 0.19
ACGTcount: A:0.32, C:0.06, G:0.03, T:0.60
Consensus pattern (18 bp):
TTTTTATGATTTTAATAA
Found at i:47467554 original size:21 final size:22
Alignment explanation
Indices: 47467523--47467573 Score: 77
Period size: 21 Copynumber: 2.3 Consensus size: 22
47467513 TAATAATTTT
*
47467523 TATGATTTTTATAGAATTTT-AA
1 TATG-TTTTTATAAAATTTTAAA
47467545 TATGTTTTTATAAAATTTTAAA
1 TATGTTTTTATAAAATTTTAAA
47467567 TATGTTT
1 TATGTTT
47467574 AATTAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (22 bp):
TATGTTTTTATAAAATTTTAAA
Found at i:47467623 original size:19 final size:17
Alignment explanation
Indices: 47467592--47467631 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 17
47467582 TTATAGATTC
*
47467592 ATTTATAAATTATTAGA
1 ATTTATAAATTATTAAA
47467609 ATTTATTAAATTTATTAAA
1 ATTTA-TAAA-TTATTAAA
47467628 ATTT
1 ATTT
47467632 TCTAATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 5 0.25
18 4 0.20
19 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTATAAATTATTAAA
Found at i:47467661 original size:29 final size:28
Alignment explanation
Indices: 47467628--47467740 Score: 86
Period size: 29 Copynumber: 3.9 Consensus size: 28
47467618 ATTTATTAAA
*
47467628 ATTTTCTAATATTTTTATTATTTTTTAT
1 ATTTTTTAATATTTTTATTATTTTTTAT
* * *
47467656 ATTTTTTACA-AGTTCTTATCAATTTTTAT
1 ATTTTTTA-ATA-TTTTTATTATTTTTTAT
** *
47467685 ATTCTTTTAATATTTAACATTTTTTTTTAT
1 ATT-TTTTAATATTT-TTATTATTTTTTAT
*
47467715 AATTTTTATAATTTTTTTATT-TTTTT
1 -ATTTTT-TAATATTTTTATTATTTTT
47467741 ATAAAATTTT
Statistics
Matches: 65, Mismatches: 13, Indels: 13
0.71 0.14 0.14
Matches are distributed among these distances:
28 8 0.12
29 26 0.40
30 21 0.32
31 10 0.15
ACGTcount: A:0.26, C:0.05, G:0.01, T:0.68
Consensus pattern (28 bp):
ATTTTTTAATATTTTTATTATTTTTTAT
Found at i:47467729 original size:8 final size:9
Alignment explanation
Indices: 47467477--47467779 Score: 76
Period size: 10 Copynumber: 32.2 Consensus size: 9
47467467 GACTTTTTAA
47467477 ATAATTTTT
1 ATAATTTTT
*
47467486 ATAACTTTAT
1 ATAA-TTTTT
*
47467496 ATCAATTTTA
1 AT-AATTTTT
*
47467506 AT-ATTTCTA
1 ATAATTT-TT
47467515 ATAATTTTT
1 ATAATTTTT
*
47467524 ATGATTTTT
1 ATAATTTTT
*
47467533 ATAGAATTTTA
1 AT--AATTTTT
*
47467544 ATATGTTTTT
1 ATA-ATTTTT
*
47467554 ATAAAATTTT
1 AT-AATTTTT
47467564 A-AATATGTTT
1 ATAAT-T-TTT
47467574 AATTAA-TTTT
1 -A-TAATTTTT
47467584 ATAGATTCATTT
1 ATA-ATT--TTT
*
47467596 ATAAATTATT
1 AT-AATTTTT
*
47467606 AGAATTTATT
1 ATAATTT-TT
47467616 A-AATTTATT
1 ATAATTT-TT
*
47467625 AAAATTTTCT
1 ATAATTTT-T
47467635 A-ATATTTTT
1 ATA-ATTTTT
*
47467644 ATTATTTTTT
1 A-TAATTTTT
*
47467654 ATATTTTTT
1 ATAATTTTT
* *
47467663 ACAAGTTCTT
1 ATAA-TTTTT
47467673 ATCAATTTTT
1 AT-AATTTTT
47467683 AT-ATTCTTT
1 ATAATT-TTT
*
47467692 -TAATATTT
1 ATAATTTTT
47467700 A-ACA--TTT
1 ATA-ATTTTT
47467707 -T--TTTTT
1 ATAATTTTT
47467713 ATAATTTTT
1 ATAATTTTT
47467722 ATAATTTTT
1 ATAATTTTT
* *
47467731 TTATTTTTTT
1 ATA-ATTTTT
*
47467741 ATAAAATTTT
1 AT-AATTTTT
*
47467751 CT-ATTTTT
1 ATAATTTTT
*
47467759 ATGATTTTT
1 ATAATTTTT
*
47467768 AATCATTTTT
1 -ATAATTTTT
47467778 AT
1 AT
47467780 GGGAAAATAT
Statistics
Matches: 223, Mismatches: 31, Indels: 80
0.67 0.09 0.24
Matches are distributed among these distances:
6 3 0.01
7 4 0.02
8 22 0.10
9 80 0.36
10 87 0.39
11 16 0.07
12 8 0.04
13 3 0.01
ACGTcount: A:0.33, C:0.04, G:0.03, T:0.60
Consensus pattern (9 bp):
ATAATTTTT
Found at i:47467756 original size:28 final size:29
Alignment explanation
Indices: 47467706--47467767 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
47467696 ATTTAACATT
* *
47467706 TTTTTTTATAATTTTTATAATTTTT-TTA
1 TTTTTTTATAAATTTTATAATTTTTATGA
*
47467734 TTTTTTTATAAAATTTTCT-ATTTTTATGA
1 TTTTTTTAT-AAATTTTATAATTTTTATGA
47467763 TTTTT
1 TTTTT
47467768 AATCATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 15 0.52
29 14 0.48
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.73
Consensus pattern (29 bp):
TTTTTTTATAAATTTTATAATTTTTATGA
Found at i:47468780 original size:21 final size:21
Alignment explanation
Indices: 47468733--47468783 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
47468723 AGGTTTTACT
* *
47468733 AATCCAATTGGTGTGGATTCA
1 AATCCCATTGGTGTAGATTCA
47468754 AATCCCATTGGTGTAGATTCA
1 AATCCCATTGGTGTAGATTCA
47468775 AATCCCATT
1 AATCCCATT
47468784 ATATGCGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (21 bp):
AATCCCATTGGTGTAGATTCA
Found at i:47470536 original size:16 final size:16
Alignment explanation
Indices: 47470506--47470535 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
47470496 GAAAAAGCAA
47470506 GAAGAAAAAGAAAAAG
1 GAAGAAAAAGAAAAAG
47470522 GAAG-AAAAGAAAAA
1 GAAGAAAAAGAAAAA
47470536 AATCGCAGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (16 bp):
GAAGAAAAAGAAAAAG
Found at i:47476484 original size:17 final size:17
Alignment explanation
Indices: 47476451--47476496 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 17
47476441 AACAAATACA
*
47476451 GTTCCAGATTCAGATTCG
1 GTTCCA-ATTCAAATTCG
47476469 GTTCCAATTCAAATTCG
1 GTTCCAATTCAAATTCG
47476486 GTTCCAATTCA
1 GTTCCAATTCA
47476497 GATTTAGATT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
17 21 0.78
18 6 0.22
ACGTcount: A:0.26, C:0.24, G:0.15, T:0.35
Consensus pattern (17 bp):
GTTCCAATTCAAATTCG
Found at i:47477636 original size:16 final size:15
Alignment explanation
Indices: 47477607--47477647 Score: 64
Period size: 16 Copynumber: 2.7 Consensus size: 15
47477597 CACCGAAACG
47477607 AAGAAAAAAAAAGAA
1 AAGAAAAAAAAAGAA
*
47477622 AAGAAAAAAGGAAGAA
1 AAGAAAAAA-AAAGAA
47477638 AAGAAAAAAA
1 AAGAAAAAAA
47477648 GACTACAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAGAAAAAAAAAGAA
Found at i:47479443 original size:40 final size:40
Alignment explanation
Indices: 47479349--47479493 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
47479339 TACTCGAATG
*
47479349 ATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
47479390 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
47479430 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
47479470 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
47479494 CTTGTGCGAG
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.01
40 62 0.67
41 28 0.30
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:47480816 original size:21 final size:21
Alignment explanation
Indices: 47480790--47480833 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
47480780 TACATTCGAA
47480790 CTAATACGGCTGTTCCACAAC
1 CTAATACGGCTGTTCCACAAC
47480811 CTAATACGGCTGTTCCACAAC
1 CTAATACGGCTGTTCCACAAC
47480832 CT
1 CT
47480834 TCATTCCCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.34, G:0.14, T:0.25
Consensus pattern (21 bp):
CTAATACGGCTGTTCCACAAC
Found at i:47491787 original size:299 final size:298
Alignment explanation
Indices: 47491234--47492111 Score: 892
Period size: 294 Copynumber: 3.0 Consensus size: 298
47491224 ACAATTTACT
* * * * ** *
47491234 GAGATAAT-AATTGTGTATATTAAAACAAAATTGTATAAGTTATATTAAAATGAAGTTTTTGTTG
1 GAGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATCAAAATGAAACTTTAGTTG
* *
47491298 AGTGATAAATTTAATGTTTTAGTAATCCAATTGG-TGCGAGTTCGAAT-TCCACCATATGCATA-
66 AGTGATAAATTTAA-GTTTTAGTAATCCAATTGGATG-G-GTTCAAATCT-TACCATATGCATAT
* * * * *
47491360 TTT-ATTGATTTTTGTTTAAAT-AAAAAACTAAAATACCCTCGAATAATTTAACTTTTTTTAATT
127 TTTAATTGATTTTTGTTAAAATGAAAAAACTAAAATACCATCAAATAATATAACTTATTTTAATT
* * * * * * * ** * *
47491423 ACAAAAGGATATTTTCATAATTTCTCAACCGAGTTGGTGATCCGGTTGAAGGTGACACCAACTCA
192 ACGAAAGGACATTTTCGTAATTTCTTAATCGAATTGGTGACCCAATTGAGGGTGACA-TAACTCA
* *
47491488 GCTAGAA-GCTTAATAAAATAGTATAGATATATAAACAACTAAT-
256 G-TAAAACACTTAAT-AAATAGTATAGATATATAAACAACTAATA
* * *
47491531 GTAGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATGAAAATAAAACTTTGGTT
1 G-AGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATCAAAATGAAACTTTAGTT
* * * * *
47491596 GAATAATAAATTTAAGGTTTTAGTAATTCAATTGGCATGGGTTTAACTCTTA-C-TATGCATATT
65 GAGTGATAAATTTAA-GTTTTAGTAATCCAATTGG-ATGGGTTCAAATCTTACCATATGCATATT
* * * *
47491659 TTAATTGGTTTTTGTTAAAATGAAAATATTAAAATACCATCAAATAATATAACTTATTTTACTTA
128 TTAATTGATTTTTGTTAAAATGAAAAAACTAAAATACCATCAAATAATATAACTTATTTTAATTA
* *
47491724 CGGAAGGACATTTTCGTAATTTTTTAATCGAATTGGTGACCCAATTGAGGGTGA-ATAAACTCAG
193 CGAAAGGACATTTTCGTAATTTCTTAATCGAATTGGTGACCCAATTGAGGGTGACAT-AACTCAG
* *
47491788 TAAAACACTTAATAAATA-T-T--ATAGATAAACAATTAATA
257 TAAAACACTTAATAAATAGTATAGATATATAAACAACTAATA
* * * * * *
47491826 GAGATGATAACA-TGTGCATATTAAAATAAAAATGTAGAAAATACA-CCAAATGAAACTTTAGTT
1 GAGATAATAA-ATTGTGTATATTAAAATAAAAATGTATAAGATATATCAAAATGAAACTTTAGTT
* * * * * * * *
47491889 GAGTGGTAAATTTAAATAATTATTAATCCAACTGGTATCGGTTCAAATTTTATCATATGCATATT
65 GAGTGATAAATTTAAGT-TTTAGTAATCCAATTGG-ATGGGTTCAAATCTTACCATATGCATATT
* * * ** *
47491954 TTAATTGATTTTCGTTAAAATG-AAAGACCAAAATACCATCAAATAGGATAACTTATTTTAATCA
128 TTAATTGATTTTTGTTAAAATGAAAAAACTAAAATACCATCAAATAATATAACTTATTTTAATTA
* * *
47492018 TGAAATGACATTTTCGTAATTTCCTAATCGAATTGGTGACCCAATTGAGGGTGACACTAACTCAG
193 CGAAAGGACATTTTCGTAATTTCTTAATCGAATTGGTGACCCAATTGAGGGTGACA-TAACTCAG
*
47492083 TAAAATACTTAATAAATAGTATAGATATA
257 TAAAACACTTAATAAATAGTATAGATATA
47492112 ACATAATTTC
Statistics
Matches: 480, Mismatches: 80, Indels: 40
0.80 0.13 0.07
Matches are distributed among these distances:
292 1 0.00
293 51 0.11
294 137 0.29
295 57 0.12
296 3 0.01
297 11 0.02
298 20 0.04
299 118 0.25
300 80 0.17
301 2 0.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (298 bp):
GAGATAATAAATTGTGTATATTAAAATAAAAATGTATAAGATATATCAAAATGAAACTTTAGTTG
AGTGATAAATTTAAGTTTTAGTAATCCAATTGGATGGGTTCAAATCTTACCATATGCATATTTTA
ATTGATTTTTGTTAAAATGAAAAAACTAAAATACCATCAAATAATATAACTTATTTTAATTACGA
AAGGACATTTTCGTAATTTCTTAATCGAATTGGTGACCCAATTGAGGGTGACATAACTCAGTAAA
ACACTTAATAAATAGTATAGATATATAAACAACTAATA
Found at i:47492383 original size:17 final size:18
Alignment explanation
Indices: 47492350--47492385 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
47492340 GAAAATATTT
47492350 ATTTATATATATATTTAA
1 ATTTATATATATATTTAA
*
47492368 ATTTAT-TATATTTTTAA
1 ATTTATATATATATTTAA
47492385 A
1 A
47492386 AATATCTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
ATTTATATATATATTTAA
Found at i:47495232 original size:17 final size:17
Alignment explanation
Indices: 47495194--47495235 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
47495184 GAAATCACAT
47495194 TCATTT-TTTAATATAA
1 TCATTTATTTAATATAA
* *
47495210 TCCATTTATTTAATTTTA
1 T-CATTTATTTAATATAA
47495228 TCATTTAT
1 TCATTTAT
47495236 ATTCATTTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 1 0.05
17 12 0.55
18 9 0.41
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.60
Consensus pattern (17 bp):
TCATTTATTTAATATAA
Found at i:47508972 original size:11 final size:11
Alignment explanation
Indices: 47508956--47508980 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
47508946 TTACCATCTC
47508956 TTTCTTTTCTT
1 TTTCTTTTCTT
47508967 TTTCTTTTCTT
1 TTTCTTTTCTT
47508978 TTT
1 TTT
47508981 GCCAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTCTTTTCTT
Found at i:47512691 original size:10 final size:9
Alignment explanation
Indices: 47512674--47512760 Score: 52
Period size: 10 Copynumber: 8.9 Consensus size: 9
47512664 CGTAAAAAAC
47512674 TATAAAATA
1 TATAAAATA
47512683 TATAGAAATA
1 TATA-AAATA
*
47512693 TAGAAAAAATA
1 T--ATAAAATA
*
47512704 TATAAAATTT
1 TATAAAA-TA
47512714 TATAAAATCA
1 TATAAAAT-A
47512724 TA-AGAAA-A
1 TATA-AAATA
47512732 TGATAAAATAA
1 T-ATAAAAT-A
*
47512743 TATAAAGAAA
1 TATAAA-ATA
47512753 TATAAAAT
1 TATAAAAT
47512761 TCGTAAAAGA
Statistics
Matches: 61, Mismatches: 6, Indels: 22
0.69 0.07 0.25
Matches are distributed among these distances:
8 2 0.03
9 16 0.26
10 32 0.52
11 9 0.15
12 2 0.03
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (9 bp):
TATAAAATA
Found at i:47512746 original size:29 final size:27
Alignment explanation
Indices: 47512653--47512748 Score: 72
Period size: 30 Copynumber: 3.4 Consensus size: 27
47512643 TTAGAAAAAT
*
47512653 ATAATA-AAAATCGTAAAAAACTATAAA
1 ATAATATAAAATCATAAAAAA-TATAAA
47512680 AT-ATATAGAAAT-ATAGAAAAAATATATAAA
1 ATAATATA-AAATCAT---AAAAA-ATATAAA
**
47512710 ATTTTATAAAATCATAAGAAAATGATAAA
1 ATAATATAAAATCATAA-AAAAT-ATAAA
47512739 ATAATATAAA
1 ATAATATAAA
47512749 GAAATATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 18
0.71 0.05 0.23
Matches are distributed among these distances:
26 3 0.05
27 4 0.07
28 8 0.15
29 16 0.29
30 17 0.31
31 7 0.13
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (27 bp):
ATAATATAAAATCATAAAAAATATAAA
Found at i:47512993 original size:20 final size:20
Alignment explanation
Indices: 47512956--47512994 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
47512946 TTAAAGGACC
47512956 TTTTTGATGCATTTTATAAT
1 TTTTTGATGCATTTTATAAT
*
47512976 TTTTTTATG-ATTTCTATAA
1 TTTTTGATGCATTT-TATAA
47512995 AATTTTACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.05, G:0.08, T:0.62
Consensus pattern (20 bp):
TTTTTGATGCATTTTATAAT
Found at i:47513045 original size:19 final size:17
Alignment explanation
Indices: 47512998--47513042 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
47512988 TCTATAAAAT
*
47512998 TTTACAATTATATATATA
1 TTTATAATT-TATATATA
*
47513016 TTTATGATTTATATATA
1 TTTATAATTTATATATA
47513033 TTTATAATTT
1 TTTATAATTT
47513043 TTAGTAAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (17 bp):
TTTATAATTTATATATA
Found at i:47516152 original size:21 final size:21
Alignment explanation
Indices: 47516107--47516152 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
47516097 TAATTAAAGT
** * *
47516107 ATTATATTATATTGTATTATT
1 ATTATATTATAAAGTAATATA
47516128 ATTATATTATAAAGTAATATA
1 ATTATATTATAAAGTAATATA
47516149 ATTA
1 ATTA
47516153 AGAAATAAAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (21 bp):
ATTATATTATAAAGTAATATA
Found at i:47516233 original size:19 final size:17
Alignment explanation
Indices: 47516209--47516249 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 17
47516199 GGGTAGCAGG
47516209 GGAAAGAAAGAAGAAAAGA
1 GGAAAGAAA-AAGAAAA-A
47516228 GGAAAGAAAAAGAAAAA
1 GGAAAGAAAAAGAAAAA
47516245 GGAAA
1 GGAAA
47516250 AATTAGGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 6 0.27
18 7 0.32
19 9 0.41
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (17 bp):
GGAAAGAAAAAGAAAAA
Found at i:47517438 original size:18 final size:18
Alignment explanation
Indices: 47517398--47517441 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
47517388 TTTGTACGGA
* *
47517398 ATAATTGACTGTTATTGT
1 ATAACTGACTGTTATAGT
47517416 ATAACTGACTGTTATAG-
1 ATAACTGACTGTTATAGT
47517433 AGTAACTGA
1 A-TAACTGA
47517442 ATGCTACTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 1 0.04
18 22 0.96
ACGTcount: A:0.34, C:0.09, G:0.18, T:0.39
Consensus pattern (18 bp):
ATAACTGACTGTTATAGT
Found at i:47528673 original size:9 final size:9
Alignment explanation
Indices: 47528659--47528688 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
47528649 TTAATTGATA
47528659 AATTAATTT
1 AATTAATTT
47528668 AATTAATTT
1 AATTAATTT
47528677 AATTAA-TT
1 AATTAATTT
47528685 AATT
1 AATT
47528689 TTATTTATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 6 0.29
9 15 0.71
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (9 bp):
AATTAATTT
Found at i:47528682 original size:13 final size:13
Alignment explanation
Indices: 47528643--47528699 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
47528633 GGGTTGAGAA
47528643 AATT-ATTTAATT
1 AATTAATTTAATT
* *
47528655 GA-TAAATTAATTT
1 AATTAATTTAA-TT
47528668 AATTAATTTAATT
1 AATTAATTTAATT
*
47528681 AATTAATTTTATT
1 AATTAATTTAATT
*
47528694 TATTAA
1 AATTAA
47528700 ATAATTTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
11 1 0.03
12 6 0.17
13 22 0.61
14 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (13 bp):
AATTAATTTAATT
Found at i:47528711 original size:18 final size:18
Alignment explanation
Indices: 47528673--47528707 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
47528663 AATTTAATTA
*
47528673 ATTTAATTAATTAATTTT
1 ATTTAATTAAATAATTTT
47528691 ATTT-ATTAAATAATTTT
1 ATTTAATTAAATAATTTT
47528708 TATTGGGTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTAATTAAATAATTTT
Found at i:47532729 original size:664 final size:664
Alignment explanation
Indices: 47531461--47532776 Score: 2578
Period size: 664 Copynumber: 2.0 Consensus size: 664
47531451 CAGCCAAAGC
*
47531461 ACCAATCAAATGATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATTAA
1 ACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATTAA
47531526 AAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTTTT
66 AAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTTTT
47531591 AGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTAGT
131 AGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTAGT
* * *
47531656 TTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGTTGACTGTAGCTTATTTTGATTTACATGTTA
196 TTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGCTGACTATAGCTTATTTTGATTTACAAGTTA
47531721 AAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTTTC
261 AAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTTTC
47531786 TTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTTTT
326 TTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTTTT
47531851 CATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAATAG
391 CATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAATAG
47531916 CTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAGGT
456 CTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAGGT
47531981 GCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGTGA
521 GCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGTGA
*
47532046 GACACGAAGGTAATCTTGTTTCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAAGA
586 GACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAAGA
47532111 TAGTGTTTAAGGGA
651 TAGTGTTTAAGGGA
47532125 ACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATTAA
1 ACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATTAA
47532190 AAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTTTT
66 AAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTTTT
47532255 AGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTAGT
131 AGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTAGT
*
47532320 TTATGTTTCTTTCTGGTTTTACTTAGTTTCGTAGCTGACTATAGCTTATTTTGATTTACAAGTTA
196 TTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGCTGACTATAGCTTATTTTGATTTACAAGTTA
47532385 AAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTTTC
261 AAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTTTC
47532450 TTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTTTT
326 TTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTTTT
47532515 CATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAATAG
391 CATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAATAG
47532580 CTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAGGT
456 CTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAGGT
47532645 GCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGTGA
521 GCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGTGA
47532710 GACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAAGA
586 GACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAAGA
47532775 TA
651 TA
47532777 AATCAAAATT
Statistics
Matches: 646, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
664 646 1.00
ACGTcount: A:0.27, C:0.13, G:0.18, T:0.42
Consensus pattern (664 bp):
ACCAATCAAATAATAGTGTTTAAGGGCACTTTAGGCAACATTTTGGGTTAGAGATTAGCTATTAA
AAGCCAATCTTGATTAAGGAAAAGAGGAGGCTTTTAGTTTTAGGTTAAAAAAGCTCATTAGTTTT
AGGGTTTCTTCATCTTTTAGCTTAAGAGTAGGGTAGTTTTCTTTTTTATAGTTTTAGGGTTTAGT
TTATGTTTCTTTCTAGTTTTACTTAGTTTCGTAGCTGACTATAGCTTATTTTGATTTACAAGTTA
AAGACTTTAAACTTAGTTGTAAGCACTCTTTAATCTTTGAATTAATGCTATTTCATTTTTCTTTC
TTTTCATCAATTGAAGCTCTCATCTTTAGTGTTCTTGTTTCTTTATCTTTGTGTTAGTTGCTTTT
CATTTTAGTTTATTAAGTTAAAAAAATCAAAGCTTTCTTCTTTTTGTTCAAGTTTATGTTAATAG
CTTCTATAGTTGTTTCTTTCATGTTTGTTAACTTTAAGATGATAATAGGTAACTAAACTTTAGGT
GCTTGGTTGATGGATATCTAAAAACTTAGGAAGTGACGCCCCTAAGGGGATATCTAGACAAGTGA
GACACGAAGGTAATCTTGTTGCCTACCCTTTCATTAGTCACAGATTAACCGGTGAGATCGAAAGA
TAGTGTTTAAGGGA
Found at i:47533312 original size:12 final size:12
Alignment explanation
Indices: 47533295--47533325 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
47533285 GACATAAAAA
*
47533295 TAGGAGTGGGAT
1 TAGGAGTGGGAG
47533307 TAGGAGTGGGAG
1 TAGGAGTGGGAG
47533319 TAGGAGT
1 TAGGAGT
47533326 ATGAGTGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.52, T:0.23
Consensus pattern (12 bp):
TAGGAGTGGGAG
Found at i:47537247 original size:27 final size:27
Alignment explanation
Indices: 47537169--47537281 Score: 122
Period size: 27 Copynumber: 4.1 Consensus size: 27
47537159 AGGAAGCGTC
*
47537169 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* * * *
47537196 CTGGTGGCTTTACTACATATTTCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
47537223 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* *
47537251 CTGGTGACTCTGTCACATTATCTGTAT
1 CTGGTGGCTCTGCCACATTATCTGTAT
47537278 CTGG
1 CTGG
47537282 CAGCCATGCT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
26 2 0.03
27 53 0.74
28 17 0.24
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:47537275 original size:54 final size:55
Alignment explanation
Indices: 47537169--47537281 Score: 135
Period size: 54 Copynumber: 2.1 Consensus size: 55
47537159 AGGAAGCGTC
* *
47537169 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTTTACTACATATTTCTGT-T
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTACTACATATATCTGTAT
* *
47537223 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGT-C-ACAT-TATCTGTAT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACT-T-TACTACATATATCTGTAT
47537278 CTGG
1 CTGG
47537282 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
54 29 0.57
55 19 0.37
56 2 0.04
57 1 0.02
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTTTACTACATATATCTGTAT
Found at i:47538757 original size:75 final size:76
Alignment explanation
Indices: 47538624--47538765 Score: 191
Period size: 75 Copynumber: 1.9 Consensus size: 76
47538614 GTAAAACGGG
*
47538624 CTCACATGCCCATGAGGCCCCACACGCCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
1 CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
47538689 TGACCCAAAAT
66 TGACCCAAAAT
** * * *
47538700 CTCACATGCCTGTGTGGGCCCACACACCC-TGTGGCCCACA-TGAC-CCAATTTTGCCTTGGCCG
1 CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTG-CTCAAATTTT-CCTTGGCCG
47538762 TGTG
64 TGTG
47538766 CCGCACACGG
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
74 9 0.16
75 25 0.43
76 24 0.41
ACGTcount: A:0.18, C:0.37, G:0.22, T:0.23
Consensus pattern (76 bp):
CTCACATGCCCATGAGGCCCCACACACCCGTGTGGCCCACATTGCTCAAATTTTCCTTGGCCGTG
TGACCCAAAAT
Found at i:47544429 original size:24 final size:23
Alignment explanation
Indices: 47544376--47544440 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
47544366 ATCTAAAACG
*
47544376 GTAAGCTCTGACGAGCT--GAATA
1 GTAAGCTCT-ACGAGCTGAGAAAA
47544398 GTAAGCTCATACGAGCTGAGAAAA
1 GTAAGCTC-TACGAGCTGAGAAAA
47544422 GTAAGCTCTTACGAGCTGA
1 GTAAGCTC-TACGAGCTGA
47544441 TATGTCGGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 15 0.39
23 1 0.03
24 22 0.58
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (23 bp):
GTAAGCTCTACGAGCTGAGAAAA
Found at i:47548168 original size:6 final size:6
Alignment explanation
Indices: 47548157--47548188 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
47548147 AAGTTTTCAA
*
47548157 TTTTAT TTTTAT TTTTAT CTTTAT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
47548189 AATGTGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (6 bp):
TTTTAT
Found at i:47550950 original size:14 final size:14
Alignment explanation
Indices: 47550931--47550957 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47550921 GTGTTGGGAG
47550931 TATTATTTTTATTC
1 TATTATTTTTATTC
47550945 TATTATTTTTATT
1 TATTATTTTTATT
47550958 TTTACAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.04, G:0.00, T:0.74
Consensus pattern (14 bp):
TATTATTTTTATTC
Found at i:47552785 original size:23 final size:23
Alignment explanation
Indices: 47552759--47552805 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
47552749 CTCCATTTTG
47552759 TACATTCTTTGCAAAGAAAACAA
1 TACATTCTTTGCAAAGAAAACAA
47552782 TACATTCTTTGCAAAGAAAACAA
1 TACATTCTTTGCAAAGAAAACAA
47552805 T
1 T
47552806 CTCCTGGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.09, T:0.28
Consensus pattern (23 bp):
TACATTCTTTGCAAAGAAAACAA
Found at i:47556136 original size:13 final size:14
Alignment explanation
Indices: 47556110--47556138 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
47556100 ACAAACAACG
47556110 AATTAAACCATTAT
1 AATTAAACCATTAT
47556124 AATTAAA-CATTAT
1 AATTAAACCATTAT
47556137 AA
1 AA
47556139 ATATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:47566827 original size:40 final size:40
Alignment explanation
Indices: 47566767--47566950 Score: 237
Period size: 40 Copynumber: 4.6 Consensus size: 40
47566757 TATTTGAATG
*
47566767 ATATCCGGGCTAAG-TCCCGAAGGCTTTTATGCTAGTGACT
1 ATATCCGGGCTAAGAT-CCGAAGGCATTTATGCTAGTGACT
* * *
47566807 ATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAG-TGACT
* * *
47566847 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
47566887 ATATCCGGGCTAAGTTCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
* *
47566927 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGATCCGAAGGC
47566951 CTTGTGAGAG
Statistics
Matches: 125, Mismatches: 16, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 121 0.97
41 3 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGATCCGAAGGCATTTATGCTAGTGACT
Found at i:47566900 original size:80 final size:80
Alignment explanation
Indices: 47566767--47566950 Score: 262
Period size: 80 Copynumber: 2.3 Consensus size: 80
47566757 TATTTGAATG
* * *
47566767 ATATCCGGGCTAAGTCCCGAAGGCTTTTATGCTAGTGACTATATCCGGACTAAGATCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
* *
47566832 TTTGTGCGAGTTG-CT
66 TTTATGCGAG-TGACC
* * *
47566847 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGCGACTATATCCGGGCTAAGTTCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
*
47566912 TTTATGCTAGTGACC
66 TTTATGCGAGTGACC
*
47566927 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGC
47566951 CTTGTGAGAG
Statistics
Matches: 93, Mismatches: 10, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
79 2 0.02
80 91 0.98
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.26
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTATGCTAGCGACTATATCCGGACTAAGATCCGAAGGCA
TTTATGCGAGTGACC
Found at i:47578311 original size:21 final size:21
Alignment explanation
Indices: 47578278--47578321 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47578268 AAGAAATTAG
*
47578278 AAGGGATGAAAGT-AGAAAAGA
1 AAGGAATGAAAGTGAG-AAAGA
*
47578299 AAGGAATGGAAGTGAGAAAGA
1 AAGGAATGAAAGTGAGAAAGA
47578320 AA
1 AA
47578322 TAAAAAAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.57, C:0.00, G:0.34, T:0.09
Consensus pattern (21 bp):
AAGGAATGAAAGTGAGAAAGA
Found at i:47581271 original size:91 final size:91
Alignment explanation
Indices: 47581130--47581369 Score: 320
Period size: 91 Copynumber: 2.6 Consensus size: 91
47581120 GATACCGTGC
*
47581130 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGGCATGG
1 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGACAT-G
*
47581195 CATCGAAATTGATTAAGGACTCTATGT
65 CATCGAAATTGATTAAGGACTCCATGT
* *
47581222 AAGACCAT-TCAAGACATGGCATTGGTAAGTCAAGGATCCTGTGTAAGACCATGTCAAGACATGC
1 AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGACATGC
*
47581286 ATCGACATTGATTAAGGACTCCATGT
66 ATCGAAATTGATTAAGGACTCCATGT
** ** * * * *
47581312 AAGACCACATCAAGATGTGGTATTGGCACTAAGACAAGGATACCATGTAAGACCATGT
1 AAGACCATGTCAAGACATGGCATTGG---TAAGGCAAGGATCCCGTGTAAGACCATGT
47581370 TTGGAACATG
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
90 33 0.25
91 65 0.50
92 8 0.06
94 25 0.19
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.23
Consensus pattern (91 bp):
AAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCATGTCAAGACATGC
ATCGAAATTGATTAAGGACTCCATGT
Found at i:47581326 original size:46 final size:47
Alignment explanation
Indices: 47581172--47581318 Score: 171
Period size: 46 Copynumber: 3.2 Consensus size: 47
47581162 AAGGATCCCG
* *
47581172 TGTAAGACCATGTCAAGGCATGGCATCGAAATTGATTAAGGACTCTA
1 TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCCA
* * * *
47581219 TGTAAGACCAT-TCAAGACATGGCATTGGTAA--G-TCAAGGA-TCCTG
1 TGTAAGACCATGTCAAGACATGGCA-TCGAAATTGATTAAGGACTCC-A
*
47581263 TGTAAGACCATGTCAAGACAT-GCATCGACATTGATTAAGGACTCCA
1 TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCCA
47581309 TGTAAGACCA
1 TGTAAGACCA
47581319 CATCAAGATG
Statistics
Matches: 82, Mismatches: 11, Indels: 15
0.76 0.10 0.14
Matches are distributed among these distances:
43 5 0.06
44 20 0.24
45 11 0.13
46 28 0.34
47 18 0.22
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTCAAGACATGGCATCGAAATTGATTAAGGACTCCA
Found at i:47581401 original size:47 final size:47
Alignment explanation
Indices: 47581341--47581509 Score: 293
Period size: 47 Copynumber: 3.6 Consensus size: 47
47581331 GTATTGGCAC
47581341 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
47581388 TAAGACAAAGATACCATGTAAGACCATGTTTGGCACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
*
47581435 TAAGACAATGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
47581482 TAAGATAAGGATATCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
47581510 CCAAGGCATG
Statistics
Matches: 115, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 115 1.00
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:47581554 original size:54 final size:54
Alignment explanation
Indices: 47581482--47581749 Score: 268
Period size: 54 Copynumber: 5.0 Consensus size: 54
47581472 TGGCATTTGG
* *
47581482 TAAGATAAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * *
47581536 TAAAATAAAGATATCATGTAAGACCATGCCAAGGCATGACATTGAGAAGTTCTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * *
47581590 TAAGGCAAGGAAATCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTA
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTT-CTA
* * ** * * *
47581645 TAAGGCAAAGGTCCCATGTAATACCATGCCAAGGCATGGCATTGGTGAGTTC-A
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
* * * * * * * * *
47581698 TAAGGCAAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTC
47581750 AAAAAGGAAA
Statistics
Matches: 179, Mismatches: 34, Indels: 3
0.83 0.16 0.01
Matches are distributed among these distances:
53 43 0.24
54 92 0.51
55 44 0.25
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (54 bp):
TAAGACAAAGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTA
Found at i:47581631 original size:108 final size:107
Alignment explanation
Indices: 47581488--47581749 Score: 328
Period size: 108 Copynumber: 2.4 Consensus size: 107
47581478 TTGGTAAGAT
* * * *
47581488 AAGGATATCATGTAAGACCATGCCAAGGCATGGCATTGATAAGTTCTATAAAATAAAGATATCAT
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAAACAAAGATACCAT
47581553 GTAAGACCATGCCAAGGCATGACATTGAG-AAGTTCTATAAGGC
66 GTAAGACCATGCCAAGGCATGACATTG-GTAAGTTC-ATAAGGC
* * ** * *
47581596 AAGGAAATCATGTAAAACCATGTCAAGACATGGCATTGATAAGTTACTATAAGGCAAAGGTCCCA
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTT-CTATAAAACAAAGATACCA
* * *
47581661 TGTAATACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
65 TGTAAGACCATGCCAAGGCATGACATTGGTAAGTTCATAAGGC
* * * * *
47581704 AAGGATACCACGTAAGACCATGTCAAGACATGACAATGGTAAGTTC
1 AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTC
47581750 AAAAAGGAAA
Statistics
Matches: 132, Mismatches: 20, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
107 1 0.01
108 87 0.66
109 44 0.33
ACGTcount: A:0.38, C:0.17, G:0.22, T:0.23
Consensus pattern (107 bp):
AAGGATATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTCTATAAAACAAAGATACCAT
GTAAGACCATGCCAAGGCATGACATTGGTAAGTTCATAAGGC
Found at i:47583252 original size:45 final size:45
Alignment explanation
Indices: 47583196--47583283 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
47583186 GAACTATGTG
* * *
47583196 ATCTGAACTTATTGAGTTGTGGTCTGAGTTCATGATATATGTGGC
1 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTGGC
*
47583241 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATGTATGTG
1 ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTG
47583284 ACAAATGTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.41
Consensus pattern (45 bp):
ATCTGAACTTATTGAGTTATGGTCTAAGTTCATCATATATGTGGC
Found at i:47585173 original size:23 final size:23
Alignment explanation
Indices: 47585143--47585187 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
47585133 ATGACATAAT
* *
47585143 TAAAAACTTAAA-CTAATTTAAC
1 TAAAAACTAAAACCGAATTTAAC
47585165 TAAATAACTAAAACCGAATTTAA
1 TAAA-AACTAAAACCGAATTTAA
47585188 TTCTTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 7 0.37
24 8 0.42
ACGTcount: A:0.56, C:0.13, G:0.02, T:0.29
Consensus pattern (23 bp):
TAAAAACTAAAACCGAATTTAAC
Done.